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dc.contributor.authorMorgan, Xochitl C
dc.contributor.authorSokol, Harry
dc.contributor.authorGevers, Dirk
dc.contributor.authorWard, Doyle V
dc.contributor.authorLeLeiko, Neal
dc.contributor.authorSands, Bruce E
dc.contributor.authorTickle, Timothy L.
dc.contributor.authorDevaney, Kathryn L
dc.contributor.authorReyes, Joshua Anthony
dc.contributor.authorShah, Samir A
dc.contributor.authorSnapper, Scott Brian
dc.contributor.authorBousvaros, Athos
dc.contributor.authorKorzenik, Joshua
dc.contributor.authorXavier, Ramnik
dc.contributor.authorHuttenhower, Curtis
dc.date.accessioned2013-04-30T13:43:33Z
dc.date.issued2012
dc.identifier.citationMorgan, Xochitl C., Timothy L. Tickle, Harry Sokol, Dirk Gevers, Kathryn L. Devaney, Doyle V. Ward, Joshua Anthony Reyes, et al. 2012. Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment. Genome Biology 13(9): R79.en_US
dc.identifier.issn1465-6906en_US
dc.identifier.issn1465-6914en_US
dc.identifier.urihttp://nrs.harvard.edu/urn-3:HUL.InstRepos:10591709
dc.description.abstractBackground: The inflammatory bowel diseases (IBD) Crohn's disease and ulcerative colitis result from alterations in intestinal microbes and the immune system. However, the precise dysfunctions of microbial metabolism in the gastrointestinal microbiome during IBD remain unclear. We analyzed the microbiota of intestinal biopsies and stool samples from 231 IBD and healthy subjects by 16S gene pyrosequencing and followed up a subset using shotgun metagenomics. Gene and pathway composition were assessed, based on 16S data from phylogenetically-related reference genomes, and associated using sparse multivariate linear modeling with medications, environmental factors, and IBD status. Results: Firmicutes and Enterobacteriaceae abundances were associated with disease status as expected, but also with treatment and subject characteristics. Microbial function, though, was more consistently perturbed than composition, with 12% of analyzed pathways changed compared with 2% of genera. We identified major shifts in oxidative stress pathways, as well as decreased carbohydrate metabolism and amino acid biosynthesis in favor of nutrient transport and uptake. The microbiome of ileal Crohn's disease was notable for increases in virulence and secretion pathways. Conclusions: This inferred functional metagenomic information provides the first insights into community-wide microbial processes and pathways that underpin IBD pathogenesis.en_US
dc.language.isoen_USen_US
dc.publisherBioMed Centralen_US
dc.relation.isversionofdoi:10.1186/gb-2012-13-9-r79en_US
dc.relation.hasversionhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC3506950/pdf/en_US
dash.licenseLAA
dc.titleDysfunction of the Intestinal Microbiome in Inflammatory Bowel Disease and Treatmenten_US
dc.typeJournal Articleen_US
dc.description.versionVersion of Recorden_US
dc.relation.journalGenome Biologyen_US
dash.depositing.authorBousvaros, Athos
dc.date.available2013-04-30T13:43:33Z
dc.identifier.doi10.1186/gb-2012-13-9-r79*
dash.authorsorderedfalse
dash.contributor.affiliatedTickle, Timothy L.
dash.contributor.affiliatedReyes, Joshua
dash.contributor.affiliatedBousvaros, Athos
dash.contributor.affiliatedSnapper, Scott
dash.contributor.affiliatedKorzenik, Joshua
dash.contributor.affiliatedHuttenhower, Curtis
dash.contributor.affiliatedXavier, Ramnik


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